Mercurial > repos > bgruening > find_subsequences
changeset 5:97ecd7154f6b draft
Uploaded
| author | bgruening |
|---|---|
| date | Fri, 20 Mar 2015 06:21:30 -0400 |
| parents | 424b06390084 |
| children | 53c20f28562e |
| files | find_subsequences.xml |
| diffstat | 1 files changed, 4 insertions(+), 10 deletions(-) [+] |
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--- a/find_subsequences.xml Fri Mar 20 06:05:15 2015 -0400 +++ b/find_subsequences.xml Fri Mar 20 06:21:30 2015 -0400 @@ -1,4 +1,4 @@ -<tool id="bg_find_subsequences" name="Subsequence search" version="0.1"> +<tool id="bg_find_subsequences" name="Nucleotide subsequence search" version="0.1"> <description>providing regions in BED format</description> <requirements> <requirement type="package" version="1.65">biopython</requirement> @@ -17,7 +17,7 @@ ]]> </command> <inputs> - <param format="fasta,fastq" name="input" type="data" label="Sequence to be searched" + <param format="fasta,fastq" name="input" type="data" label="Nucleotide sequence to be searched" help="This can be in FASTA or FASTQ format." /> <conditional name="pattern_conditional"> @@ -248,11 +248,6 @@ </param> </when> </conditional> - - - - - </inputs> <outputs> <data format="bed" name="output" /> @@ -282,10 +277,9 @@ **What it does** -Searches for a subsequence in a larger sequence. For example to get all restriction enzymes for BamHI. +Searches for a subsequence in a larger nucleotide sequence. For example to get all restriction enzymes for BamHI. -If you are searching in a DNA sequence you can use ambiguous values using the standard -`nucleotide ambiguity code <http://www.dnabaser.com/articles/IUPAC%20ambiguity%20codes.html>`_. +You can use ambiguous values using the standard `nucleotide ambiguity code <http://www.dnabaser.com/articles/IUPAC%20ambiguity%20codes.html>`_. This tool is searching on both strands.